_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:1     SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
_________________________________|______________________|_________________________________________________________________________________

 Blastx evalue: 1e-47
 Query name: gi|1020956539|ref|XP_016157438.1| PREDICTED: methionine-R-sulfoxide reductase B1 [Ficedula albicollis]
 Query range: 1-105  (total 114)

 Target: /data/www-rg/seblastian_results/99443121/tempfiles/temptarget.fasta
 Chromosome: JAGGNJ010002445.1:subseq_1,150000_ Strand: -
 Positions:
 -Exon 1  19755        19809
 -Exon 2  18976        19118
 -Exon 3  18733        18849

 Redox box: no

Query   MSFCSFLGGEVFKDHFQPG <---Intron---> IYVCAKCGHELFSSRAKYEHSSPWPAFTETLRGDSVAKREERPGALK <---Intron---> VT
        ||||||||||||||||||| <   636bp    > ||||||||||||||||||||||||||||||||||||||||||||||| <   126bp    > ||
Target  MSFCSFLGGEVFKDHFQPG                IYVCAKCGHELFSSRAKYEHSSPWPAFTETLRGDSVAKREERPGALK                VT
        atttttcggggtagctccg                atgtgatgcgcttacgatgcttctcgtagaccggaggacggccggca                ga
        tctgcttggattaaatac                gtatgcaggaattcggcaaaacccgcctcactggagtcagaagcgcta                tc
        gcccccggaggcgtccgg                ttcgtcgtctggccctcgcgcggggacccgcgcgccgcgcggcggggg                gg
                                                                                                            

Query   CGKCGNGLGHEFLNDGPKRGQSRFUIFSSSLKFVPKG
        |||||||||||||||||||||||||||||||||||||
Target  CGKCGNGLGHEFLNDGPKRGQSRFUIFSSSLKFVPKG
        tgatgagcgcgtcaggcaagctcttataatcatgcag
        ggaggagtgaattaagcaggacgtgttggctattcag
        tcgtccggccgccctccggcgcccaacccgggcccat
                                *            
 Sequence until next stop: 
ACCAGAGGTGGCTTGGCCCCTGTCCCAGCGCAGGGAGTTGGTTTTGGGCATGCTGTGAGTGCTGCACTGCTTGCAGCAGCCCTGGCCGGGCTGATAAGGCCAGGGAGCTGCTCCTGGGGTACATCCAGCTCACTCTGCCCAGCTCGGGGCTCCCTGATCCCAGCTGGAGCTCCTGGGTAA
 T  R  G  G  L  A  P  V  P  A  Q  G  V  G  F  G  H  A  V  S  A  A  L  L  A  A  A  L  A  G  L  I  R  P  G  S  C  S  W  G  T  S  S  S  L  C  P  A  R  G  S  L  I  P  A  G  A  P  G  * 

 Distance CDS-SECIS: 1453 ; UGA-SECIS: 1489

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = JAGGNJ010002445.1:subseq_1,150000_ Strand = - Positions = 17279 - 17207
 Found by:  Infernal (score=19.65) Covels (score=22.75)
 Stem2 length = 7   Apical loop length = 20   Insertion in stem2 = 0, 0
 Free Energy = -22.15

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .(((((((((--....{[[[{(((((((........-............)))))))}]]]}..--...))))))))).
 target  CUGGGAUCAU--GCUAUGAAGUGCCCUAUAUAAACC-CUUCCAGGGUGCUGGGGCAGGGAUGU--UUGAUGGUCCCAC
                         ****           ^^                        ****